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Genomics|Features|Antibiotic Resistance

Antimicrobial Resistance

Antimicrobial Resistance: Public Health & Genomics Efforts - June 4, 2015

CDC Info

• Improving antibiotic use
• CDC Antibiotic Resistance Solutions Initiative
• Patients face more lethal infections from CRE
• CDC blog post:Outsmarting antimicrobial-resistant pathogens
• White House announces national strategy for combating antibiotic-resistant bacteria
• Antibiotic Resistance Solutions Initiative
• Antibiotic / Antimicrobial Resistance
• CDCAdvanced Molecular Detective Initiativeincludes a project ongenomic sequencing of Neisseria gonorrhoeae to respond to the urgent threat of antimicrobial-resistant gonorrhea

Novel programs and discoveries aim to combat antibiotic resistance.
Hampton T et al. JAMA2015 Jun 3.

Over 150 animal and health stakeholders join White House effort to combat antibiotic resistance, White House Fact Sheet, June 2

CDC information: Improving antibiotic use

Targets for combating the evolution of acquired antibiotic resistance.
Culyba MJ et al. Biochemistry 2015 May 27.

Systematic review, meta-analysis and economic modelling of molecular diagnostic tests for antibiotic resistance in tuberculosis.
Drobniewski F et al. Health Technol Assess 2015 May (34) 1-188

The human gut resistome.
van Schaik W et al. Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2015 Jun 5. (1670)

CDC Antibiotic Resistance Solutions Initiative

WHO report finds systems to combat antibiotic resistance lacking, WHO, Apr 29

Our plan to combat and prevent antibiotic-resistant bacteria,HHS Secretary, White House Blog Post, Mar 27

Obama unveils $1.2B plan to tackle drug-resistant bacteria, by Sarah Ferris, the Hill, Mar 27

Rapid antibiotic resistance predictions from genome sequence data for S. aureus and M. tuberculosis.
Phelim Bradley et al. BioRXIV Server, April 26, 2015

Antibiotic discovery in the age of structural biology - a comprehensive overview with special reference to development of drugs for the treatment of Pseudomonas aeruginosa infection.
Koehnke A et al. In Vivo 2015 03-04 (2) 161-167

Renaissance in antibiotic discovery: Some novel approaches for finding drugs to treat bad bugs.
Gadakh B et al. Curr. Med. Chem. 2015 Mar 19.

Proteomics as the final step in the functional metagenomics study of antimicrobial resistance.
Fouhy F et al. Front Microbiol 2015 172

A microbiological revolution meets an ancient disease: Improving the management of tuberculosis with genomics.
Wlodarska M et al. Clin. Microbiol. Rev. 2015 Apr (2) 523-539

Detection of drug-resistant tuberculosis by Xpert MTB/RIF in Swaziland.
Sanchez-Padilla E et al. N. Engl. J. Med. 2015 Mar 19. (12) 1181-2

Comparative whole genome sequencing of community-associated methicillin-resistant Staphylococcus aureus sequence type 8 from primary care clinics in a Texas community.
Lee GC et al. Pharmacotherapy 2015 Feb (2) 220-8

Population structure and antimicrobial resistance of invasive serotype IV group B Streptococcus, Toronto, Ontario, Canada.
Teatero S et al. Emerging Infect. Dis. 2015 Apr (4) 585-591

Investigation of a possible outbreak of carbapenem-resistant Acinetobacter baumannii in Odense, Denmark using PFGE, MLST and whole-genome-based SNPs.
Hammerum AM et al. J. Antimicrob. Chemother. 2015 Mar 19.

Population structure of Neisseria gonorrhoeae based on whole genome data and its relationship with antibiotic resistance.
Ezewudo MN et al. PeerJ 2015 e806

Carbapenem-Resistant Enterobacteriaceae: Public Health and Genomic Insights - February 23, 2015

CDC Information: Patients face more lethal infections from CRE

Carbapenem-resistant Enterobacteriaceae: biology, epidemiology, and management.
Temkin Elizabeth et al. Ann. N. Y. Acad. Sci. 2014 Sep 22-42

Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae.
Conlan Sean et al. Sci Transl Med 2014 Sep 17. (254) 254ra126

Molecular characteristics of carbapenem-resistant gram-negative bacteria in Southern China.
Zheng Fen et al. Microb. Drug Resist. 2014 Dec 3.

Complete nucleotide sequence of the IncN plasmid encoding IMP-6 and CTX-M-2 from emerging carbapenem-resistant enterobacteriaceae in Japan.
Kayama Shizuo et al. Antimicrob. Agents Chemother. 2015 Feb (2) 1356-9

Global dissemination of extensively drug-resistant carbapenemase-producing Enterobacteriaceae: clinical perspectives on detection, treatment and infection control.
Tängdén T et al. J. Intern. Med. 2014 Dec 29.

Molecular dissection of the evolution of carbapenem-resistant multilocus sequence type 258 Klebsiella pneumoniae.
Deleo Frank R et al. Proc. Natl. Acad. Sci. U.S.A. 2014 Apr 1. (13) 4988-93

Antibiotic Resistance: Insights From a Pile of Dirt to Resistomes - January 9, 2015

Promising antibiotic discovered in microbial ‘dark matter’. Potential drug kills pathogens such as MRSA — and was discovered by mining 'unculturable' bacteria, Heidi Ledford, Nature News, Jan 7

From a pile of dirt, hope for a powerful new antibiotic,by Denise Grad, New York Times, Jan 7 

Microbe found in grassy field contains powerful antibiotic, Science News, Jan 7

Will new antibiotic Teixobactin save us all? Umm, not quite, Siouxsie Wiles, Infectious Thoughts, Science Blog, Jan 8

Antibiotics: US discovery labelled 'game-changer' for medicine, by James Gallagher, BBC News, Jan 7

A new antibiotic kills pathogens without detectable resistance 
Losee L. Ling, Nature, January 7, 2015 

What is a resistance gene? Ranking risk in resistomes. 
José L. Martínez,  et al. Nature Reviews Microbiology, December 15, 2014  

Fighting Antimicrobial Resistance: Emerging Role for Genomics - November 26, 2014

Using genomics to tackle antimicrobial resistance, by Laura Blackburn, PHG Foundation, Nov 20

Genomics and the management of antimicrobial resistance: current successes and future challenges,PHG Foundation, Policy Brief, November 2014 

Outsmarting Antimicrobial-Resistant Pathogens: Role of Genomics - October 30, 2014

New CDC blog post: Outsmarting antimicrobial-resistant pathogens, by Marta Gwinn, CDC Office of Public Health Genomics and guest blogger Clifford McDonald, Division of Healthcare Quality Promotion, NCEZID, CDC

Recent insights

Disentangling human tolerance and resistance against HIV 
Regoes R, et al. PLoS Biol 2014; 12(9): e1001951.

A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics 
Donia MS, et al. Cell. 2014;158(6):1402-14.
Comment: 
Mining the microbiome for medicines: Set a thief... 
The Economist, Sep 20, 2014.

Infection control in the multidrug-resistant era: tending the human microbiome 
Tosh PK, McDonald LC. Clin Infect Dis 2012;54(5):707-13.

Association of antibiotics in infancy with early childhood obesity 
Bailey LC, et al. JAMA Pediatr, Sep 29, 2014.

Sequence-specific antimicrobials using efficiently delivered RNA-guided nucleases 
Citorik RJ, et al. Nat Biotechnol, Sep 21, 2014. 
Comment: 
Battling superbugs with gene-editing system 
Trafton A. Phys.Org, Sep 21, 2014.

Discovery of modulators of HIV-1 infection from the human peptidome 
Munch J, et al. Nat Rev Microbiol 2014; 12: 715–722.

Antibiotic Resistance: Genomics & Public Health - September 25, 2014

CDC information: White House announces national strategy for combating antibiotic-resistant bacteria

CDC initiative: Detect and protect against antibiotic resistance 

CDC information: Each year in the United States, at least 2 million people become infected with bacteria that are resistant to antibiotics and at least 23,000 people die each year as a direct result of these infections

NIH blog post: New strategies in battle against antibiotic resistance include expansion of DNA sequencing capacity and collection of those microbial genetic sequences in a centralized National Database of Resistant Pathogens, by Drs. Anthony S. Fauci and Francis Collins, Sep 18

US vows to combat antibiotic resistance -strategy lauded, but some fear it is lax on agricultural use, by Sara Reardon, Nature News, Sep 23

New US strategy on antimicrobial resistance launched, by Dr Philippa Brice, PHG Foundation, Sep 22

Superbugs meet their match in rapid genome sequencing
Sample I. Guardian, Sep 12, 2014.

How bacterial genomes could help tackle antibiotic resistance, by Leila Lehushi, PHG Foundation, Aug 10

Podcast Q&A: How genomics can tackle antimicrobial resistance, from SciDevNet, May 2014

CDC Advanced Molecular Detective Initiative project includes a project on genomic sequencing of Neisseria gonorrhoeae to respond to the urgent threat of antimicrobial-resistant gonorrhea